View on GenomicsDBv4 beta site   

EED - ENSG00000074266

embryonic ectoderm development

Also known as: WAIT-1, HEED

Location: chr11:85,955,586-85,989,855

Gene Type: protein coding

More information
NCBI Gene
8726
HUGO
HGNC:3188
Ensembl
ENSG00000074266
VEGA
OTTHUMG00000167209
OMIM
605984
UniProtKB
O75530

Genomic Context

The genome browser snapshot is fully interactive. Mouse over track elements for more information. Click and drag to move tracks. Click and drag on top positional guide to zoom to a sub-region.

To add tracks, use the provided link to switch to the full genome browser view.

Gene-based Trait Associations

Back to Top

ADSP WES: Alzheimer's Disease ADSP

Results from gene-level rare and functional variant aggregation tests for association to AD supported by significane of p < 0.5 / #genes.

Individual score test statistics for rare, predicted functional, and loss of function variants colocated with the gene were aggregated to compute gene level p-values.

See NIAGADS Accession NG00065 for more information.

Back to Top
Accession Population N SNPs p-value Sign. Level rho CMAF CMAC Covariates Variant Filter Caveats
NG00065 European 2 0.184 N/A 1 2.4e-04 5.0 PCs and sequencing center VEP HIGH
NG00065 Caribbean Hispanic 2 0.213 N/A 1 2.5e-03 2.0 PCs, sequencing center, sex, age at AD onset or last-known dementia-free age (for controls), and APOE E2 and E4 genotypes VEP MOD-HIGH
NG00065 Caribbean Hispanic 2 0.229 N/A 1 2.5e-03 2.0 PCs, sequencing center, sex, and age at AD onset or last-known dementia-free age (for controls) VEP MOD-HIGH
NG00065 Caribbean Hispanic 2 0.234 N/A 1 2.5e-03 2.0 PCs and sequencing center VEP MOD-HIGH
NG00065 European 1 0.433 N/A 0 4.8e-05 1.0 PCs and sequencing center LOF
NG00065 Meta 19 0.464 N/A 1 2.5e-03 53.1 PCs, sequencing center, sex, and age at AD onset or last-known dementia-free age (for controls) VEP MOD-HIGH N/A
NG00065 Meta 19 0.497 N/A 1 2.5e-03 53.1 PCs, sequencing center, sex, age at AD onset or last-known dementia-free age (for controls), and APOE E2 and E4 genotypes VEP MOD-HIGH N/A
NG00065 European 2 0.517 N/A 1 2.4e-04 5.0 PCs, sequencing center, sex, and age at AD onset or last-known dementia-free age (for controls) VEP HIGH
NG00065 European 2 0.556 N/A 1 2.4e-04 5.0 PCs, sequencing center, sex, age at AD onset or last-known dementia-free age (for controls), and APOE E2 and E4 genotypes VEP HIGH
NG00065 European 18 0.662 N/A 1 2.4e-03 51.1 PCs, sequencing center, sex, and age at AD onset or last-known dementia-free age (for controls) VEP MOD-HIGH N/A
NG00065 European 1 0.689 N/A 0 4.8e-05 1.0 PCs, sequencing center, sex, age at AD onset or last-known dementia-free age (for controls), and APOE E2 and E4 genotypes LOF
NG00065 European 1 0.698 N/A 0 4.8e-05 1.0 PCs, sequencing center, sex, and age at AD onset or last-known dementia-free age (for controls) LOF
NG00065 European 18 0.706 N/A 1 2.4e-03 51.1 PCs, sequencing center, sex, age at AD onset or last-known dementia-free age (for controls), and APOE E2 and E4 genotypes VEP MOD-HIGH N/A
NG00065 Meta 19 0.794 N/A 0 2.5e-03 53.1 PCs and sequencing center VEP MOD-HIGH N/A
NG00065 European 18 0.856 N/A 0 2.4e-03 51.1 PCs and sequencing center VEP MOD-HIGH N/A

Genetic Variation and Variant-based Trait Associations (GWAS)

Variants contained within the EED gene.

Back to Top

The EED gene contains 2,170 variants records (corresponding to 2,067 unique genomic positions).

The following variants, contained within ±100kb of EED, have been found to be associated with Alzheimer's disease in a GWAS study:

NIAGADS GWAS: Alzheimer's Disease

Variants contained within ±100kb of EED that have genome-wide significance in a NIAGADS Alzheimer's Disease GWAS summary statistics dataset; supported by a p-value < 5 x 10-8. For exome array studies, a cutoff of p-value < 1 x 10-3 was used.

Click on accession numbers to view a detailed report about the dataset or to request access to the data.

Back to Top

Login in to select variants and add them to your basket.

Relative Position Variant ADSP? Allele p-Value Track Accession
upstream A 9.3e-26 IGAP 2013: Stages 1 and 2 NG00036
upstream T 6.0e-25 IGAP 2013: Stages 1 and 2 NG00036
upstream C 3.6e-24 IGAP 2013: Stages 1 and 2 NG00036
upstream G 5.8e-24 IGAP 2013: Stages 1 and 2 NG00036
upstream G 2.8e-17 IGAP 2013: Stages 1 and 2 NG00036
upstream C 2.9e-17 IGAP 2013: Stages 1 and 2 NG00036
upstream G 3.0e-17 IGAP 2013: Stages 1 and 2 NG00036
upstream A 6.5e-16 IGAP 2013: Stage 1 NG00036
upstream T 2.8e-15 IGAP 2013: Stage 1 NG00036
upstream C 9.3e-15 IGAP 2013: Stage 1 NG00036
upstream T 1.4e-14 IGAP 2013: Stages 1 and 2 NG00036
upstream G 2.2e-14 IGAP 2013: Stage 1 NG00036
upstream C 2.5e-12 Transethnic LOAD: All Samples NG00056
upstream A 5.1e-12 Transethnic LOAD: All Samples NG00056
upstream A 1.3e-11 AD Age of Onset Survival (IGAP) NG00058
upstream T 1.4e-11 AD Age of Onset Survival (IGAP) NG00058
upstream T 2.6e-11 Transethnic LOAD: All Samples NG00056
upstream A 3.8e-11 IGAP (2013): ADGC Subset NG00053
upstream C 1.0e-10 IGAP (2013): ADGC Subset NG00053
upstream T 1.1e-10 ADGC 2011: Stages 1 and 2 NG00027
upstream A 1.1e-10 IGAP (2013): ADGC Subset NG00053
upstream A 1.1e-10 AD Age of Onset Survival (IGAP) NG00058
upstream A 1.1e-10 ADGC 2011: Stages 1 and 2 NG00027
upstream A 1.5e-10 Transethnic LOAD: All Samples NG00056
upstream T 1.5e-10 IGAP (2013): ADGC Subset NG00053
upstream C 3.5e-10 ADGC 2011: Stages 1 and 2 NG00027
upstream A 5.6e-10 ADGC 2011: Stages 1 and 2 NG00027
upstream C 1.2e-9 IGAP 2013: Stage 1 NG00036
upstream G 1.7e-9 IGAP 2013: Stage 1 NG00036
upstream T 2.2e-9 IGAP 2013: Stage 1 NG00036
upstream G 2.2e-9 IGAP 2013: Stage 1 NG00036
upstream G 3.0e-9 IGAP 2013: Stage 1 NG00036
upstream A 4.3e-9 IGAP 2013: Stages 1 and 2 NG00036
upstream A 1.5e-8 IGAP 2013: Stages 1 and 2 NG00036
upstream A 2.7e-8 Transethnic LOAD: All Samples NG00056
upstream C 3.0e-8 IGAP 2013: Stages 1 and 2 NG00036
upstream T 4.8e-8 IGAP 2013: Stages 1 and 2 NG00036

NHGRI GWAS: Alzheimer's Disease

Variants contained within ±100kb of EED that are associated with Alzheimer's disease in the NHGRI GWAS Catalog.

The following variants, contained within ±100kb of EED, have been associated with AD-relevant neuropathologies in a GWAS study:

NIAGADS GWAS: AD biomarkers and related neuropathologies

Variants contained within ±100kb of EED that have genome-wide significance in a NIAGADS GWAS summary statistics dataset; supported by a p-value < 5 x 10-8. For exome array studies, a cutoff of p-value < 1 x 10-3 was used.

Click on accession numbers to view a detailed report about the dataset or to request access to the data.

NHGRI GWAS: Other Traits (incl. related neuropathologies and AD biomarkers)

Variants contained within ±100kb of EED that are associated with a trait in the NHGRI GWAS Catalog.

Functional Genomics

Back to Top

Explore all functional genomics annotations within the region of the EED gene (chr11:85955586-85989855)

Transcription Factor Binding Site Overlap in Gene Promoter Region (ENCODE ChIP-SEQ)

ChIP-Seq sites for transcription factor binding (from selected brain-relevant ENCODE tracks) within the promoter region of this gene. See methods for more information.

Functional Annotation

Gene Ontology

Functional annotations were obtained from UniProt-GOA gene association files.

Click on a term accession number to view term details at the Gene Ontology Consortium.

Back to Top
Ontology GO Accession Term Evidence Code
BP GO:0016569 chromatin modification IEA
BP GO:0016571 histone methylation IEA
BP GO:0045814 negative regulation of gene expression, epigenetic TAS
BP GO:0045892 negative regulation of transcription, DNA-templated NAS
BP GO:0000122 negative regulation of transcription from RNA polymerase II promoter IEA
BP GO:0061087 positive regulation of histone H3-K27 methylation IEA
BP GO:2000011 regulation of adaxial/abaxial pattern formation IEA
BP GO:0006349 regulation of gene expression by genetic imprinting IEA
BP GO:0006355 regulation of transcription, DNA-templated IEA
BP GO:0021510 spinal cord development IEA
BP GO:0006351 transcription, DNA-templated IEA
CC GO:0005694 chromosome IEA
CC GO:0005829 cytosol IDA
CC GO:0035098 ESC/E(Z) complex IDA,IEA
CC GO:0005654 nucleoplasm IDA,TAS
CC GO:0005634 nucleus NAS,IEA
CC GO:0045120 pronucleus IEA
CC GO:0001739 sex chromatin IEA
MF GO:0003682 chromatin binding IEA
MF GO:0042054 histone methyltransferase activity IDA
MF GO:0042802 identical protein binding IPI
MF GO:0005515 protein binding IPI
MF GO:0000978 RNA polymerase II core promoter proximal region sequence-specific DNA binding IEA

KEGG Pathways

Click on a pathway accession number to view term details at KEGG.

Click on the number in the Find Similar column to get a list of genes annotated by the associated pathway.